Contacts of the strand formed by residues 210 - 224 (chain C) in PDB entry 6BAA
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ILE 210 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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299B GLN* 5.0 2.8 + - - -
177C ARG* 4.0 16.2 - - + +
181C LEU* 3.4 44.6 - - + -
204C ASP* 3.4 14.7 + - - +
209C MET* 1.3 84.7 - - - +
211C ILE* 1.3 62.7 + - - +
212C SER 3.8 0.2 + - - -
213C ALA* 3.7 24.0 + - + +
251C LEU 5.9 0.2 + - - -
287C LEU* 5.3 4.5 - - + -
288C GLU 4.4 2.2 - - - +
289C GLY* 3.7 30.5 - - - -
290C VAL 3.3 11.7 - - - +
291C VAL* 5.2 4.5 - - + -
298C THR* 5.2 7.6 - - - +
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Residues in contact with ILE 211 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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288B GLU* 3.1 22.2 - - + +
297B THR* 3.2 46.7 - - + +
298B THR* 3.4 20.4 - - - +
299B GLN* 3.5 26.5 - - + +
301B ARG* 5.7 0.7 - - - +
209C MET* 5.0 1.1 - - + +
210C ILE* 1.3 68.9 - - - +
212C SER* 1.3 78.8 + - - +
213C ALA 3.1 3.2 + - - -
290C VAL* 2.8 41.1 + - + +
292C GLU* 4.1 26.5 - - + -
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Residues in contact with SER 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288B GLU* 2.6 42.9 + - - +
297B THR* 4.6 5.2 - - - +
299B GLN* 4.5 0.2 - - - +
210C ILE 3.8 0.4 + - - -
211C ILE* 1.3 79.9 - - - +
213C ALA* 1.3 66.9 + - - +
214C THR* 3.0 15.6 + - - -
248C SER* 5.3 5.4 - - - -
289C GLY* 3.9 7.5 - - - -
290C VAL* 5.0 2.9 - - - -
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Residues in contact with ALA 213 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210C ILE* 3.7 24.0 + - + +
211C ILE 3.1 3.4 - - - -
212C SER* 1.3 73.8 - - - +
214C THR* 1.3 58.7 + - - +
248C SER* 3.2 5.2 - - - -
249C ILE* 2.9 57.3 + - + +
251C LEU* 5.3 5.6 - - + +
287C LEU* 4.5 7.9 - - + -
288C GLU 3.4 11.4 - - - +
289C GLY* 4.3 1.3 - - - -
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Residues in contact with THR 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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212C SER* 3.0 15.5 + - - -
213C ALA* 1.3 74.6 + - - +
215C ILE* 1.3 65.8 + - - +
216C HIS* 3.7 24.0 - - + +
247C ASN* 3.3 31.4 + - + +
248C SER* 4.5 5.5 - - - -
286C ILE 3.7 0.7 - - - +
287C LEU* 3.5 2.8 - - - +
288C GLU* 2.8 46.8 + - - +
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Residues in contact with ILE 215 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183C PHE* 6.1 1.6 - - + -
202C VAL* 4.5 9.4 - - + -
214C THR* 1.3 73.4 - - - +
216C HIS* 1.3 71.1 + - - +
217C MET* 5.4 1.1 - - + -
240C MET* 3.6 39.9 - - + +
247C ASN* 2.9 27.1 + - - +
249C ILE* 4.0 18.8 - - + -
251C LEU* 5.7 0.2 - - + -
257C ILE* 3.5 41.3 - - + -
285C VAL* 4.7 12.8 - - + -
286C ILE 3.4 7.4 - - - +
287C LEU* 3.5 26.2 - - + -
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Residues in contact with HIS 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214C THR* 3.7 24.7 - - + +
215C ILE* 1.3 81.9 + - - +
217C MET* 1.3 61.7 + - - +
218C GLN* 4.3 8.7 - - + +
238C ILE 5.6 0.2 - - - -
240C MET* 5.4 0.4 - - - -
247C ASN* 4.4 17.1 + - - -
284C ILE 4.0 0.2 - - - +
285C VAL* 3.8 1.4 - - - -
286C ILE* 2.8 45.8 + - + +
288C GLU* 3.5 35.4 + - + -
212D SER* 5.8 0.2 - - - -
244D VAL* 6.3 1.4 - - - +
248D SER* 3.3 33.9 + - - -
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Residues in contact with MET 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198C PHE* 4.1 35.9 - - + -
200C LEU* 4.5 8.1 - - + -
215C ILE* 5.4 0.2 - - + -
216C HIS* 1.3 75.8 - - - +
218C GLN* 1.3 66.6 + - - +
236C VAL 3.7 0.2 - - - +
237C ASP* 3.9 0.3 - - - -
238C ILE* 2.8 56.8 + - + +
240C MET* 3.5 33.4 - - + +
257C ILE* 4.5 16.4 - - + +
258C TYR 5.7 0.4 - - - -
259C HIS* 4.6 3.1 - - + -
283C ILE* 4.0 13.9 - - + -
284C ILE 3.4 9.4 - - - +
285C VAL* 4.2 20.6 - - + -
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Residues in contact with GLN 218 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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216C HIS* 5.4 7.7 - - + +
217C MET* 1.3 81.3 - - - +
219C VAL* 1.3 64.1 + - - +
220C VAL* 4.0 1.1 - - + +
235C GLN* 2.8 44.1 + - + +
236C VAL 3.1 10.8 - - - +
237C ASP* 4.5 14.4 - - - +
238C ILE* 4.5 0.2 - - - -
283C ILE* 3.6 3.1 - - - +
284C ILE* 2.7 51.3 + - + +
286C ILE* 5.8 1.6 - - + -
248D SER 5.1 0.3 - - - +
249D ILE* 4.1 8.1 - - - +
250D PHE* 3.1 41.9 + - - +
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Residues in contact with VAL 219 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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218C GLN* 1.3 73.4 - - - +
220C VAL* 1.3 70.7 + - - +
221C ARG* 3.6 18.2 + - + +
234C HIS 2.9 14.6 - - - +
235C GLN* 3.4 1.0 - - - -
236C VAL* 2.9 32.6 + - + +
238C ILE* 3.5 33.4 - - + -
266C PRO* 4.0 13.2 - - + -
267C LEU* 4.6 11.2 - - + -
281C LEU* 5.2 5.4 - - + -
282C GLU 3.7 3.4 - - - +
283C ILE* 3.7 27.8 - - + -
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Residues in contact with VAL 220 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35C PHE* 4.2 20.0 - - + -
218C GLN* 5.3 0.7 - - + -
219C VAL* 1.3 72.6 - - - +
221C ARG* 1.3 64.4 + - - +
222C LYS 5.6 0.2 - - - +
233C LEU* 3.6 40.2 - - + -
234C HIS 3.4 3.4 - - - +
235C GLN* 4.8 13.2 - - + +
280C ASP 5.0 0.3 - - - +
281C LEU* 3.9 5.7 - - - +
282C GLU* 2.8 41.3 + - + +
284C ILE* 3.4 34.1 - - + -
326D TYR* 5.9 1.1 - - + +
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Residues in contact with ARG 221 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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219C VAL* 3.6 10.8 + - + +
220C VAL* 1.3 78.1 - - - +
222C LYS* 1.3 73.5 + - - +
223C THR* 2.7 32.6 + - - +
232C PRO 4.4 1.3 - - - -
234C HIS* 3.0 27.5 + - - +
236C VAL* 5.7 6.8 - - + +
266C PRO* 3.3 37.3 + - - +
267C LEU* 4.5 7.5 - - - +
270C LEU* 5.2 3.0 - - - +
279C GLN* 5.1 3.6 + - - -
280C ASP 5.8 0.4 - - - -
281C LEU* 3.3 49.0 - - + +
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Residues in contact with LYS 222 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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220C VAL* 5.6 0.2 - - - +
221C ARG* 1.3 79.4 - - - +
223C THR* 1.3 58.9 + - - +
224C THR* 5.4 5.5 - - + +
230C VAL* 3.7 25.8 - - + +
231C VAL 3.2 16.6 - - - +
232C PRO* 3.5 25.1 + - + +
280C ASP 5.9 0.8 + - - -
281C LEU* 5.0 1.6 - - - +
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Residues in contact with THR 223 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221C ARG* 2.7 43.3 + - - +
222C LYS* 1.3 72.1 - - - +
224C THR* 1.3 87.7 + - - +
225C SER* 4.4 0.4 + - - -
229C GLU 3.9 0.7 - - - +
230C VAL* 3.7 1.6 - - - +
231C VAL* 2.9 34.5 + - - +
234C HIS* 4.2 20.3 - - + +
193D HIS* 5.8 6.3 - - + -
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Residues in contact with THR 224 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222C LYS* 5.4 5.6 - - + +
223C THR* 1.3 95.0 - - - +
225C SER* 1.3 67.0 + - - +
226C PRO* 4.8 0.2 - - - +
228C GLY* 5.6 1.8 - - - -
229C GLU 3.2 9.2 - - - -
230C VAL* 4.3 22.0 - - + -
193D HIS* 5.2 1.6 - - - -
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il